Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,096,090	0	A	G	51.0%	54.8 / 80.0	51	I83V (ATT→GTT)	hisF	imidazole glycerol phosphate synthase, catalytic subunit with HisH
Reads supporting (aligned to +/- strand):  ref base A (3/22);  new base G (26/0);  total (29/22)
Fisher's exact test for biased strand distribution p-value = 1.47e-11
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.27e-08

GCTGGCAAAACGCTACGCTGAAGAAGGCGCTGACGAACTGGTGTTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTGGCGTGCAGTGTATTGTGGTCGGTATTGATACCTGGT  >  NC_000913/2095945‑2096240                                                                                                                                                  |                                                                                                                                                          gCTGGCAAAACGCTACGCTGAAGAAGGCGCTGACGAACTGGTGTTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGGGGGG‑TTaa                                                                                                                                                      >  1:857927/1‑150 (MQ=255)     gCAAAACGCTACGCTGAAGAAGGCGCTGACGAACTGGTGTTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTTAGtct                                                                                                                                                  >  2:535761/1‑150 (MQ=255)      cAAAACGCTACGCTGAAGAAGGCGCTGACGAACTGGTGTTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTctct                                                                                                                                                <  2:375097/151‑1 (MQ=255)               acgctGAAGAAGGCGCTGACGAACTGGTGTTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGTCTCTggga                                                                                                                                            >  2:263772/1‑144 (MQ=255)               acgctGAAGAAGGCGCTGACGAACTGGTGTTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGAt                                                                                                                                         <  2:377988/149‑1 (MQ=255)                   tGAAGAAGGCGCTGACGAACTGGTGTTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGTCTCTGGGAGATggc                                                                                                                                      >  1:229918/1‑146 (MQ=255)                            cgcTGACGAACTGGTGTTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGGCTCTGGAAGATGCCGCGAAAATTCtt                                                                                                                          >  1:397602/1‑151 (MQ=255)                                      cTGGTGTTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAGGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTTAGTCTCTGGGAGATGCCGCGAAAATTTTTTTCTTTTgcg                                                                                                                >  1:463583/1‑151 (MQ=255)                                          tgtTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGGGGGG‑TTAAGGCTCTGGGAGATGCCGCGAAAATTTTTTTCTTTTGCgg‑ggg                                                                                                           >  2:723302/1‑150 (MQ=255)                                           gtTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGa                                                                                                           <  1:771198/150‑1 (MQ=255)                                             tCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATa                                                                                                         <  1:86448/150‑1 (MQ=255)                                                 cGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGGCTCTGGAAGATGCCGCGAAAATTCTTTTCTTTTGCGC‑GGATAAAAtt                                                                                                    >  1:787050/1‑151 (MQ=255)                                                 cGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAAtt                                                                                                    <  1:832372/151‑1 (MQ=255)                                                  gATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGGGGGG‑TTAAATCTCTGGAAGAAGCCCCGAAAAATTTTTTCTTTTGCGC‑GGGTAAAAttt                                                                                                   >  2:523399/1‑151 (MQ=255)                                                  gATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGGGGGG‑GTAAGTCTCTGGAAGATGCCGCGAAAAATTTTTTCTTTGGCGC‑GGGGAAAAatt                                                                                                   >  1:575482/1‑151 (MQ=255)                                                   atatCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTc                                                                                                  <  1:625673/151‑1 (MQ=255)                                                       cACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCAt                                                                                               <  2:229923/150‑1 (MQ=255)                                                           gCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGTCTCTGGAAGATGCCCCGAAAATTCTTTTCTTTGGGGC‑GGATAAAAATTCCAt                                                                                               >  1:803526/1‑146 (MQ=255)                                                           gCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAAct                                                                                          <  1:144035/151‑1 (MQ=255)                                                                 aGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGGCTCTGGAAGATGCCGCGAAAAATTTTTTCTTTGGCGC‑GGATAAAATTTCCATCAACTCTcc                                                                                      >  2:302398/1‑149 (MQ=255)                                                                 aGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGGGGGG‑TTTAGTCTCTGGAAGATGCCGCGAAAATTTTTTCCTTTGGCGC‑GGGTAAAATTTTCATCAACTCTcc                                                                                      >  1:790180/1‑149 (MQ=255)                                                                                gTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCaa                                                                    <  1:341353/151‑1 (MQ=255)                                                                                 tAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGATTTAAGT‑TCTGGGAGATGCCGCGAAAAATTTTTTCTTTTGGGC‑GGGTAAAATTTTCATTAACACTTCT‑CCGCTGGGAGAacc                                                                      >  2:559023/1‑148 (MQ=255)                                                                                  aGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGTCTCTGGAAGATGCCCCGGAAATTCTTTCCTTTTGCGC‑GGATAAAATTTCCCTCAACTCTCCT‑TCGCTGGCAGACCCaa                                                                    >  2:830299/1‑149 (MQ=255)                                                                                    aTAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTTGCGC‑GGATAAAATTTTCATCAACTCTCCT‑GCGCTGGCAGACCCAACatt                                                                >  2:837537/1‑151 (MQ=255)                                                                                    aTAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACatt                                                                <  2:323012/151‑1 (MQ=255)                                                                                      aaaaGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACattaa                                                              <  1:901406/151‑1 (MQ=255)                                                                                        aaGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGTCTCTGGAAGATGCCGCGAAAATTTTTTTCTTTTGGGC‑GGGTAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACattaa                                                              >  1:883321/1‑149 (MQ=255)                                                                                             gggTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACt                                                         <  2:750880/149‑1 (MQ=255)                                                                                               gTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAATCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGGTAAAATTTTCATCAACTCTCCT‑GCGCTGGCAGACCCAAAATTAATTACTCGcc                                                     >  2:895930/1‑151 (MQ=255)                                                                                                 aTCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGTCTCTGGAAGAAGCCGCGAAAATTTTTTCCTTTGGCGC‑GGGTAAAAATTTCATCAACTCTCCT‑CCGCTGGCCGACCCCAAAATAATTACTCGcc                                                     >  1:866221/1‑149 (MQ=255)                                                                                                 aTCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑GTAAGTCTCTTGGAGATGGCCCGAAAATTCTTTCCTTTGGCGG‑GGATAAAAATTTCATCAACTCTCCTGGCGC‑GGCCGACCCAACACTAATTAATCgtccg                                                   >  1:496039/1‑147 (MQ=255)                                                                                                  tctcGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGTCTCTGGGAGATGCCGCGGAAATTTTTTTCTTTGGCGC‑GGGTAAAATTTCCATCAACTCTCCT‑GCGCTGGCCGACCCCACATTAATTACTCGcc                                                     >  1:912555/1‑148 (MQ=255)                                                                                                     cgcgTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTg                                                   <  1:662858/147‑1 (MQ=255)                                                                                                     cgcgTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTg                                                   <  2:51871/147‑1 (MQ=255)                                                                                                     cgcgTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGGGGGG‑TTAAGTCTCTGGGAGATGCCGCGAAAATTCTTTTCTTTGGCGC‑GGGTAAAATTTTCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGcc                                                >  2:325631/1‑150 (MQ=255)                                                                                                        gTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATc                                            <  1:538491/151‑1 (MQ=255)                                                                                                             ggAAGTGATCGACATTCCGTTTTGTGTGGCGGGGGGGG‑TTAAGTCTCTGGGAGATGCCGCGAAAATTCTTTTCTTTGGCGCGGGGAAAAATTTCCTTC‑ACTCTCCT‑GCGCTGGGAGACCCCACATTAATTTTTCCCCTTGCCGATCGcct                                        >  1:168960/1‑148 (MQ=255)                                                                                                              gAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTg                                      <  2:579437/151‑1 (MQ=255)                                                                                                                aGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCCGGCCGATCGCttt                                       >  2:578809/1‑148 (MQ=255)                                                                                                                  tGATCGACATTCCGTTTTGTGTGGCGGGTGGGG‑TTAAGTCTCTGGGAGATGCCGCGAAAATTTTTTCCTTTTGCGC‑GGATAAAATTTTCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTGGCg                                   >  2:579148/1‑150 (MQ=255)                                                                                                                  tGATCGACATTCCGTTTTGTGTGGCGGGGGGGG‑TTAAGTCTCTGGGAGATGCCGCGAAAATTCTTTTCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTGGCg                                   >  2:399582/1‑150 (MQ=255)                                                                                                                     tCGACATTCCGTTTTGTGTGGCGGGGGGGG‑TTAAGTCTCTGGGAGATGCCGCGAAAATTTTTTTCTTTTGCGC‑GGGTAAAATTTTCATCAAATCTCCT‑GCGCTGGCAGACCCAACATTAATTAATCGCCTGGCCGATCGCTTTGGGGTg                                 >  1:571547/1‑149 (MQ=255)                                                                                                                     tCGACATTCCGTTTTGTGTGGCGGGGGGGG‑GTTAGTCTCTGGAAGATGCCGCGGAAAATTTTTTCGTTGGGGC‑GGGTAAAATTTCCATTAACTCTCCT‑GGGCCGGCAGAACCAACATTAATTACTCGCCTGGCCGACCGCTTTTGCg                                   >  1:135167/1‑147 (MQ=255)                                                                                                                        aCATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTGGCGTGCAgtg                            <  2:857937/151‑1 (MQ=255)                                                                                                                        aCATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTGGCGTGCAgt                             <  2:47201/150‑1 (MQ=255)                                                                                                                          aTTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTGGCGTGCAGTGTa                          <  1:762669/151‑1 (MQ=255)                                                                                                                               gTTTTGTGTGGCGGGGGGGG‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGGTAAAATTTTCATCAACTCTCCT‑GCGCTGGCAGACCCCACATTAATTACTCGCCTGGCCGATCGCTTTGGCGTGCAGTGTATtgt                      >  1:604397/1‑150 (MQ=255)                                                                                                                                         gCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTGGCGTGCAGTGTATTGTGGTCGGTATTg           <  1:830472/151‑1 (MQ=255)                                                                                                                                               gggA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTGGCGTGCAGTGTATTGTGGTCGGTATTGATACCt     <  1:513700/151‑1 (MQ=255)                                                                                                                                               gggA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTGGCGTGCAGTGTATTGTGGTCGGTATTGATACCt     <  2:814638/151‑1 (MQ=255)                                                                                                                                                  a‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTGGCGTGCAGTGTATTGTGGTCGGTATTGATACCTGGt  >  2:546404/1‑151 (MQ=255)                                                                                                                                                  |                                                                                                                                                          GCTGGCAAAACGCTACGCTGAAGAAGGCGCTGACGAACTGGTGTTCTACGATATCACCGCTTCCAGCGATGGCCGTGTGGTAGATAAAAGCTGGGTATCTCGCGTGGCGGAAGTGATCGACATTCCGTTTTGTGTGGCGGGTGGGA‑TTAAGTCTCTGGAAGATGCCGCGAAAATTCTTTCCTTTGGCGC‑GGATAAAATTTCCATCAACTCTCCT‑GCGCTGGCAGACCCAACATTAATTACTCGCCTGGCCGATCGCTTTGGCGTGCAGTGTATTGTGGTCGGTATTGATACCTGGT  >  NC_000913/2095945‑2096240

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑